Taming the BEAST—A Community Teaching Material Resource for BEAST 2. (29th June 2017)
- Record Type:
- Journal Article
- Title:
- Taming the BEAST—A Community Teaching Material Resource for BEAST 2. (29th June 2017)
- Main Title:
- Taming the BEAST—A Community Teaching Material Resource for BEAST 2
- Authors:
- Barido-Sottani, Joëlle
Bošková, Veronika
Plessis, Louis Du
Kühnert, Denise
Magnus, Carsten
Mitov, Venelin
Müller, Nicola F.
PečErska, Jūlija
Rasmussen, David A.
Zhang, Chi
Drummond, Alexei J.
Heath, Tracy A.
Pybus, Oliver G.
Vaughan, Timothy G.
Stadler, Tanja - Abstract:
- Abstract: Phylogenetics and phylodynamics are central topics in modern evolutionary biology. Phylogenetic methods reconstruct the evolutionary relationships among organisms, whereas phylodynamic approaches reveal the underlying diversification processes that lead to the observed relationships. These two fields have many practical applications in disciplines as diverse as epidemiology, developmental biology, palaeontology, ecology, and linguistics. The combination of increasingly large genetic data sets and increases in computing power is facilitating the development of more sophisticated phylogenetic and phylodynamic methods. Big data sets allow us to answer complex questions. However, since the required analyses are highly specific to the particular data set and question, a black-box method is not sufficient anymore. Instead, biologists are required to be actively involved with modeling decisions during data analysis. The modular design of the Bayesian phylogenetic software package BEAST 2 enables, and in fact enforces, this involvement. At the same time, the modular design enables computational biology groups to develop new methods at a rapid rate. A thorough understanding of the models and algorithms used by inference software is a critical prerequisite for successful hypothesis formulation and assessment. In particular, there is a need for more readily available resources aimed at helping interested scientists equip themselves with the skills to confidently useAbstract: Phylogenetics and phylodynamics are central topics in modern evolutionary biology. Phylogenetic methods reconstruct the evolutionary relationships among organisms, whereas phylodynamic approaches reveal the underlying diversification processes that lead to the observed relationships. These two fields have many practical applications in disciplines as diverse as epidemiology, developmental biology, palaeontology, ecology, and linguistics. The combination of increasingly large genetic data sets and increases in computing power is facilitating the development of more sophisticated phylogenetic and phylodynamic methods. Big data sets allow us to answer complex questions. However, since the required analyses are highly specific to the particular data set and question, a black-box method is not sufficient anymore. Instead, biologists are required to be actively involved with modeling decisions during data analysis. The modular design of the Bayesian phylogenetic software package BEAST 2 enables, and in fact enforces, this involvement. At the same time, the modular design enables computational biology groups to develop new methods at a rapid rate. A thorough understanding of the models and algorithms used by inference software is a critical prerequisite for successful hypothesis formulation and assessment. In particular, there is a need for more readily available resources aimed at helping interested scientists equip themselves with the skills to confidently use cutting-edge phylogenetic analysis software. These resources will also benefit researchers who do not have access to similar courses or training at their home institutions. Here, we introduce the "Taming the Beast" (https://taming-the-beast.github.io/ ) resource, which was developed as part of a workshop series bearing the same name, to facilitate the usage of the Bayesian phylogenetic software package BEAST 2. … (more)
- Is Part Of:
- Systematic biology. Volume 67:Number 1(2018:Feb.)
- Journal:
- Systematic biology
- Issue:
- Volume 67:Number 1(2018:Feb.)
- Issue Display:
- Volume 67, Issue 1 (2018)
- Year:
- 2018
- Volume:
- 67
- Issue:
- 1
- Issue Sort Value:
- 2018-0067-0001-0000
- Page Start:
- 170
- Page End:
- 174
- Publication Date:
- 2017-06-29
- Subjects:
- Bayesian inference -- MCMC -- phylodynamics -- phylogenetics
Biology -- Classification -- Periodicals
Biology -- Periodicals
Biologie -- Classification -- Périodiques
Biologie -- Périodiques
578.012 - Journal URLs:
- http://ukcatalogue.oup.com/ ↗
- DOI:
- 10.1093/sysbio/syx060 ↗
- Languages:
- English
- ISSNs:
- 1063-5157
- Deposit Type:
- Legaldeposit
- View Content:
- Available online (eLD content is only available in our Reading Rooms) ↗
- Physical Locations:
- British Library DSC - 8589.180700
British Library DSC - BLDSS-3PM
British Library HMNTS - ELD Digital store - Ingest File:
- 12288.xml